Locus 2011

Sequence ID dm3.chr2L
Location 15,523,057 – 15,523,152
Length 95
Max. P 0.912771
window2763 window2764

overview

Window 3

Location 15,523,057 – 15,523,152
Length 95
Sequences 9
Columns 113
Reading direction forward
Mean pairwise identity 72.84
Shannon entropy 0.51942
G+C content 0.51270
Mean single sequence MFE -32.22
Consensus MFE -15.97
Energy contribution -16.27
Covariance contribution 0.30
Combinations/Pair 1.40
Mean z-score -1.77
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.23
SVM RNA-class probability 0.912771
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15523057 95 + 23011544
----------------AUGGUCCCGUCGUCCUCGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCAAAGGGAGAG
----------------....((((......(((((((....(((--(((..((..(((((...........))))).))..)))))).....))))))).......))))... ( -34.02, z-score =  -2.64, R)
>droSim1.chr2L 15280654 95 + 22036055
----------------AUGGUCCCGUCGUCCUCGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCAAAGGGAGAG
----------------....((((......(((((((....(((--(((..((..(((((...........))))).))..)))))).....))))))).......))))... ( -34.02, z-score =  -2.64, R)
>droSec1.super_3 1776106 95 + 7220098
----------------AUGGUCCCGUCGUCCUCGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCAAAGGGAGAG
----------------....((((......(((((((....(((--(((..((..(((((...........))))).))..)))))).....))))))).......))))... ( -34.02, z-score =  -2.64, R)
>droYak2.chr2L 2518008 95 - 22324452
----------------UGGGUCCCUUCGUGUUCGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCAAGAGGAGAG
----------------....((((((....(((((((....(((--(((..((..(((((...........))))).))..)))))).....)))))))....))).)))... ( -31.30, z-score =  -1.61, R)
>droEre2.scaffold_4929 7268999 94 + 26641161
----------------UGGGUCCGU-CGUCCUUGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCGAGAGGAGAG
----------------....(((.(-((..(((((((....(((--(((..((..(((((...........))))).))..)))))).....)))))))...)))..)))... ( -32.40, z-score =  -1.71, R)
>droAna3.scaffold_12984 116155 83 - 754457
-----------CUCGUCUGGGACUU-UGUCCUUGCUGCCCUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCCGGCCGUCUGGGGC----------------
-----------...((..(((((..-.))))).)).(((((...--.(((.....(((((...........))))).)))((....))....)))))---------------- ( -24.20, z-score =   0.15, R)
>dp4.chr4_group4 4303528 86 - 6586962
---------------UCUGCUGCUUUUGUCCUUGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCCAGGCAGGGGGACUG----------
---------------............((((((.((((...(((--(((..((..(((((...........))))).))..))))))....))))))))))..---------- ( -30.50, z-score =  -1.09, R)
>droPer1.super_10 2139998 86 - 3432795
---------------UCUGCUGCUUUUGUCCUUGCUGCACUGUC--AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCACAGGCAGGGGGACUG----------
---------------............((((((.((((..((((--(((..((..(((((...........))))).))..)))))))...))))))))))..---------- ( -32.30, z-score =  -2.17, R)
>droMoj3.scaffold_6500 20929385 113 + 32352404
AUAUUUUCUUUUUGCCAUGUUUGUUGCGCUCUGUUGGCAGGGCCGCAGCAUCAUUAUGGCUAAUAAACAUUGUCAUUUGCGGCUGCCCUGCAGAAAUUGCUACAGAAGUGGAG
..............((((.(((((.(((.....((.(((((((.((.(((.....(((((...........))))).))).)).))))))).))...))).))))).)))).. ( -37.20, z-score =  -1.55, R)
>consensus
________________AUGGUCCCUUCGUCCUCGCUGCACUGUC__AGCAUCAUUAUGGCUAAUAAACAUUGCCAUUUGCGGCUGGCCAACACAGCGAGAUUCAAA_GGAGAG
..............................(((((((....(((..(((..((..(((((...........))))).))..)))))).....))))))).............. (-15.97 = -16.27 +   0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,523,057 – 15,523,152
Length 95
Sequences 9
Columns 113
Reading direction reverse
Mean pairwise identity 72.84
Shannon entropy 0.51942
G+C content 0.51270
Mean single sequence MFE -31.36
Consensus MFE -11.41
Energy contribution -11.86
Covariance contribution 0.45
Combinations/Pair 1.31
Mean z-score -1.98
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.612461
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15523057 95 - 23011544
CUCUCCCUUUGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCGAGGACGACGGGACCAU----------------
...((((.(((..((((((((..(((..((((..((.(((((...........)))))..))..)))--).)))..)))))))).))).))))....---------------- ( -38.70, z-score =  -3.84, R)
>droSim1.chr2L 15280654 95 - 22036055
CUCUCCCUUUGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCGAGGACGACGGGACCAU----------------
...((((.(((..((((((((..(((..((((..((.(((((...........)))))..))..)))--).)))..)))))))).))).))))....---------------- ( -38.70, z-score =  -3.84, R)
>droSec1.super_3 1776106 95 - 7220098
CUCUCCCUUUGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCGAGGACGACGGGACCAU----------------
...((((.(((..((((((((..(((..((((..((.(((((...........)))))..))..)))--).)))..)))))))).))).))))....---------------- ( -38.70, z-score =  -3.84, R)
>droYak2.chr2L 2518008 95 + 22324452
CUCUCCUCUUGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCGAACACGAAGGGACCCA----------------
...(((..(((....((((((..(((..((((..((.(((((...........)))))..))..)))--).)))..))))))...)))..)))....---------------- ( -33.50, z-score =  -2.61, R)
>droEre2.scaffold_4929 7268999 94 - 26641161
CUCUCCUCUCGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCAAGGACG-ACGGACCCA----------------
...(((..(((..(((.((((..(((..((((..((.(((((...........)))))..))..)))--).)))..)))).))).))-).)))....---------------- ( -30.00, z-score =  -1.45, R)
>droAna3.scaffold_12984 116155 83 + 754457
----------------GCCCCAGACGGCCGGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGGGCAGCAAGGACA-AAGUCCCAGACGAG-----------
----------------(((((((.(((....)))...(((((...........))))).......))--)...)))).....((((.-..))))........----------- ( -21.30, z-score =   0.04, R)
>dp4.chr4_group4 4303528 86 + 6586962
----------CAGUCCCCCUGCCUGGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCAAGGACAAAAGCAGCAGA---------------
----------..((((..(((((((...((((..((.(((((...........)))))..))..)))--).))).))))...))))............--------------- ( -26.80, z-score =  -0.73, R)
>droPer1.super_10 2139998 86 + 3432795
----------CAGUCCCCCUGCCUGUGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU--GACAGUGCAGCAAGGACAAAAGCAGCAGA---------------
----------..((((..((((((((..((((..((.(((((...........)))))..))..)))--))))).))))...))))............--------------- ( -27.30, z-score =  -1.65, R)
>droMoj3.scaffold_6500 20929385 113 - 32352404
CUCCACUUCUGUAGCAAUUUCUGCAGGGCAGCCGCAAAUGACAAUGUUUAUUAGCCAUAAUGAUGCUGCGGCCCUGCCAACAGAGCGCAACAAACAUGGCAAAAAGAAAAUAU
..(((....(((.((...(((((((((((.((.(((...........((((((....))))))))).)).)))))))....)))).)).)))....))).............. ( -27.20, z-score =   0.07, R)
>consensus
CUCUCC_UUUGAAUCUCGCUGUGUUGGCCAGCCGCAAAUGGCAAUGUUUAUUAGCCAUAAUGAUGCU__GACAGUGCAGCAAGGACGAAAGGACCAU________________
.................(((((....((((........))))..((((....(((.........)))..))))..)))))................................. (-11.41 = -11.86 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:43:02 2011